General information for g1972.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1972 is located on chr_3: 14156107..14161713 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_3 | g1972 | g1972.t6 | isoform | g1972.t6 | 14151539 | 14153839 |
| chr_3 | g1972 | g1972.t6 | exon | g1972.t6.exon1 | 14151539 | 14152075 |
| chr_3 | g1972 | g1972.t6 | cds | g1972.t6.CDS1 | 14152059 | 14152075 |
| chr_3 | g1972 | g1972.t6 | exon | g1972.t6.exon2 | 14152130 | 14152267 |
| chr_3 | g1972 | g1972.t6 | cds | g1972.t6.CDS2 | 14152130 | 14152267 |
| chr_3 | g1972 | g1972.t6 | exon | g1972.t6.exon3 | 14152345 | 14152707 |
| chr_3 | g1972 | g1972.t6 | cds | g1972.t6.CDS3 | 14152345 | 14152594 |
| chr_3 | g1972 | g1972.t6 | exon | g1972.t6.exon4 | 14153620 | 14153839 |
| chr_3 | g1972 | g1972.t6 | TSS | g1972.t6 | NA | NA |
| chr_3 | g1972 | g1972.t6 | TTS | g1972.t6 | NA | NA |
Sequences
>g1972.t6 Gene=g1972 Length=1258
ATTATTACGTCGTATGCTTTATTGATTTCATTTCGAGCAGTATCATGTTTTTGTTGCAAC
TCTTGCAAAGATGCGACAAGTTTTGAGTTCTGAACATCGCAATAATCAATTTTGCCTCGA
GTATTCTTTAATAAATTTTCAACGTCCATGCGCATACTCTTTTCAGCCTCACTTATGACT
TCATAGCGATGTTCGGTCGCTTTATGATCAGAAATTAGACACTCATTGCACACTGGAGTC
TCGCAGCTGTAGCAAAAATACTTAAGATTTTCTGTTGCATGAACGCTACAGTATAGAGGT
TTATGAATAGTTCCACTCGCTTCCAATGTAACAACTTGATGTTCTTCAAAACATCGCATA
GTACGATGAGCTTTATCGCAATCAGTGCAAAGAAAATTGGCACAACCATTGCAGCGCGAG
ATTGCTTCCTCCTTGCTCTTGCATGATGTGCACAATAATGTGCTGATATCAGTTGTTGCA
AGATCAAGGATGTTAGTCAAAATAAAATGGAAAGGTAGAGATGAAGGACCTCTTGGATAA
CGTACTTTGGTTATTTGATCACAAGTTGGACACTCAATTACGGCTTCTTCCGATGAGTCT
TCCAATGATAATTTTGAGATGCATGGATCGCAAAAGAAATGTAAGCATGATAAAACACGA
GGTAGAATCAATTTTTTACTGGCAATTCTTGCAATTTTCATCTTTACCATCATTCACTCC
TTCAAGTGGTTCAACAGCAACTTCTTCACCATTGCCGTTTGTTGTAAAAGTCTCACCCGA
AAAAATATTCTCAGATACACTAACAGTTGATGTTGTCGTCGTTATTGATGAATCAGTAGA
AGAAGTAGGTAAGGGAGATGATGGTGATGATGAAATCGGCGATGGCGATGGTGCTGTATC
CACAAGCTCCATTACTCTCCAATAAATAAATTAGTAGTTTGTTATTGATTTTGGGAAATA
ATATTTAGGCCTCTTAGTTGCTTTGTGTTGTTGTGTTTTCTCGTAAAATGATCGTTTCTT
TCATAAACTTAAACAAACAAAATTTATTTTTTATTTTAGAAAATTTTCTCGATTTCTGCT
TTTAGAGACCACTCAACTTACCCCGCAAATTCACTTGCCCCTTGAATTTTTTTTTTAAAT
TTAAAATTGGCGCTTTATTTTCCGTTAGGAAATGCACAAAAGATATTTTCATTTGAAGTG
AAGATAAACAAAGTACTTTTTTCCGAAAAAAAAGAATTAAATAATCGTGTATGAAAGA
>g1972.t6 Gene=g1972 Length=134
MKDLLDNVLWLFDHKLDTQLRLLPMSLPMIILRCMDRKRNVSMIKHEVESIFYWQFLQFS
SLPSFTPSSGSTATSSPLPFVVKVSPEKIFSDTLTVDVVVVIDESVEEVGKGDDGDDEIG
DGDGAVSTSSITLQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g1972.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 109 | 134 | - |
| 3 | g1972.t6 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 19 | - |
| 4 | g1972.t6 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 35 | - |
| 2 | g1972.t6 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 36 | 134 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
